I recently installed updates from the update manager. To my surprise I noticed that a bunch of installed applications were being removed.

The update was mainly some bug fixes for Compiz. There was no prior warning that these applications where to be removed in order to complete the update. Applications that were removed seemed to be everything I installed like Pidgin, Ardour, Webcam Studio, Sound indicator, most JACK related software.

Has anyone ever had a Similar problem? I'm now scared to update. Was this a virus? What do I do?